Article
Biophysics
Saurabh Tomar, Barbora Lavickova, Carlotta Guiducci
Summary: The application of recombinase polymerase amplification (RPA) for pH-based detection of DNA amplification has been explored, indicating that commercial RPA kits inherently buffer the pH. Strategies to minimize the buffering capacity of the RPA kit have been investigated, while maintaining amplification efficiency remains a challenge.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Biochemistry & Molecular Biology
Canyu Zhang, Qingting Li, Tianbin Xu, Wei Li, Yungang He, Hongzhou Gu
Summary: This study identified two new classes of DNA-hydrolyzing deoxyribozymes by programming a terminal hybridization stem, in addition to the previously reported classes, using the old selection strategy. These new deoxyribozymes can specifically hydrolyze DNA in the presence of Zn2+ and may have potential applications in engineering DNA-responsive DNA hydrolyzers for detecting target ssDNA sequences.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Food Science & Technology
Yiran Xiao, Honglin Ren, Pan Hu, Yang Wang, Han Wang, Yansong Li, Kai Feng, Cong Wang, Qi Cao, Yuxi Guo, Zengshan Liu, Shiying Lu
Summary: A simple, visual, and ultrasensitive method based on CRISPR/Cas12a and RPA was developed for the detection of Yersinia enterocolitica. The method achieved a rapid detection of Y. enterocolitica in less than 45 minutes, with a detection limit 100 times lower than qPCR.
Review
Pharmacology & Pharmacy
Mohamad H. Shahrajabian, Wenli Sun, Qi Cheng
Summary: LAMP technology has been widely used in the detection of human pathogenic bacteria, crop pests, and pathogenic organisms in food products. Additionally, new amplification methods like RPA and RAA have shown great potential in quickly and accurately amplifying DNA. In conclusion, these nucleic acid amplification tests provide diverse options for the detection of COVID-19.
CURRENT PHARMACEUTICAL DESIGN
(2021)
Review
Biotechnology & Applied Microbiology
Alangar I. Bhat, Rashid Aman, Magdy Mahfouz
Summary: Plant diseases caused by viruses have a significant impact on crop production and quality, resulting in substantial losses. The options for managing viruses are limited due to their nature as systemic obligate parasites. In this regard, sensitive, robust, and affordable diagnostic assays are needed to detect the presence of viruses in plant materials and prevent their spread. Traditional methods based on biological and physical properties have limitations in terms of sensitivity and time consumption. On the other hand, assays based on viral proteins and nucleic acids offer more specificity, sensitivity, and rapidity. However, they often require sophisticated equipment and technical skills in laboratory settings. Isothermal-based assays, such as LAMP and RPA, provide a simple and reliable alternative that does not require specialized equipment or skills. These assays can be performed using lateral flow devices, making them suitable for onsite detection or testing in the field. Isothermal amplification assays can also be combined with CRISPR/Cas technology to overcome non-specific amplification and cross-contamination issues. The collateral activity associated with some CRISPR/Cas systems has been successfully utilized for the visual detection of plant viruses.
PLANT BIOTECHNOLOGY JOURNAL
(2022)
Article
Engineering, Biomedical
Shirin Khaliliazar, Ingrid Oberg Mansson, Andrew Piper, Liangqi Ouyang, Pedro Reu, Mahiar Max Hamedi
Summary: Fiber-based biosensors with microfluidic structures and electroanalytical readout are used for Nucleic Acid Amplification Testing. Two types of fiber-based electrodes are characterized, and a woven electrochemical DNA sensor is fabricated for specific detection of genomic DNA of Staphylococcus epidermidis.
ADVANCED HEALTHCARE MATERIALS
(2021)
Article
Biophysics
Yi Ma, Haiping Wu, Shan Chen, Chunmei Xie, Jingjing Hu, Xiemin Qi, Xueping Ma, Yanan Chu, Jingwen Shan, Yan Lu, Lunbiao Cui, Bingjie Zou, Guohua Zhou
Summary: In this study, a highly specific and multiplex nucleic acid detection platform called FEN1-aided RPA (FARPA) was developed by combining flap endonuclease 1 (FEN1)-catalyzed invasive reactions with recombinase polymerase amplification (RPA). FARPA exhibits high specificity, fast detection time, and low detection limit, making it suitable for pathogen screening and discrimination of viral variants, especially for SARS-CoV-2 detection.
BIOSENSORS & BIOELECTRONICS
(2023)
Article
Biophysics
Xin Ye, Ning Wang, Yang Li, Xueen Fang, Jilie Kong
Summary: The COVID-19 pandemic highlights the threat of infectious diseases to human life and society. There is an urgent need for new nucleic acid-based diagnostic methods to detect pathogens early and effectively control epidemics.
BIOSENSORS & BIOELECTRONICS
(2021)
Article
Chemistry, Analytical
Xinyu Wang, Huiyuan Wang, Hongmin Zhang, Tianxi Yang, Bin Zhao, Juan Yan
Summary: This study successfully prepared physically pure DNA hydrogel and controlled its mechanical properties by adjusting the degree of hydrogen bonding in ultralong single-stranded DNA precursors. The results showed that a higher degree of hydrogen bonding in the precursor DNA resulted in stronger internal interaction forces, a more complex internal network of the hydrogel, a denser hydrogel, improved mechanical properties, and enhanced entrapment efficiency. This research is of great significance for improving the synthesis efficiency and economy of DNA hydrogels, enhancing and adjusting the overall quality and performance of the hydrogel, and expanding the application field of DNA hydrogels.
Article
Microbiology
Nina M. Pollak, Malin Olsson, Glenn A. Marsh, Joanne Macdonald, David McMillan
Summary: Accurate and rapid diagnosis of Nipah virus is crucial for disease control. This study developed three rapid molecular diagnostic tests based on recombinase-based isothermal amplification and lateral flow detection. These tests have high sensitivity, do not cross-react with other viruses, and can be performed safely without the need for complex RNA purification. They are well suited for rapid diagnosis under resource-limited conditions.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Chemistry, Analytical
Aleksandr V. V. Ivanov, Irina V. V. Safenkova, Natalia V. V. Drenova, Anatoly V. V. Zherdev, Boris B. B. Dzantiev
Summary: This study compared the performance of four amplification techniques, including recombinase polymerase amplification (RPA) and loop-mediated isothermal amplification (LAMP), for the detection of the bacterial phytopathogen Erwinia amylovora. The results showed that the detection methods based on RPA, LAMP, CRISPR/Cas12a, and LFT were rapid, user-friendly, and highly sensitive for E. amylovora detection. These methods can be applied to diagnose fire blight and effectively manage the disease.
Article
Food Science & Technology
Foteini Roumani, Cristina Rodrigues, Jorge Barros-Velazquez, Alejandro Garrido-Maestu, Marta Prado
Summary: A rapid and reliable RPA-LF assay was developed for the detection of spoilage fungi in fruit-based products. The method showed high sensitivity and specificity, making it suitable for point of care applications.
FOOD ANALYTICAL METHODS
(2023)
Article
Food Science & Technology
Jessica Frigerio, Tommaso Gorini, Cassandra Palumbo, Fabrizio De Mattia, Massimo Labra, Valerio Mezzasalma
Summary: The study aims to develop new DNA-based assays for identifying fresh mackerel and commercial products. A new primer pair was designed to identify a DNA mini-barcoding region suitable for species identification in commercial products. Additionally, a new assay based on RPA and lateral flow visualization was developed for fast and low-cost identification of different species of mackerel.
FOOD ANALYTICAL METHODS
(2023)
Review
Chemistry, Analytical
Changjing Yuan, Jie Fang, Marc Lamy de la Chapelle, Yang Zhang, Xiaojun Zeng, Guorong Huang, Xiang Yang, Weiling Fu
Summary: The combination of SERS and NAIA provides researchers with more sensitive and precise analysis in biological samples, covering various techniques such as HCR, CHA, EDR, SDA, RPA, EXPAR, RCA, and LAMP. Challenges and prospective opinions of SERS in application are also discussed.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2021)
Article
Food Science & Technology
Zhicheng Wang, Zhiying Wang, Tingting Li, Lu Qiao, Rui Liu, Yan Zhao, Zhenzhen Xu, Gang Chen, Shuming Yang, Ailiang Chen
INTERNATIONAL JOURNAL OF FOOD SCIENCE AND TECHNOLOGY
(2020)
Article
Chemistry, Applied
Shanshan Zhao, Yan Zhao, Karyne M. Rogers, Gang Chen, Ailiang Chen, Shuming Yang
Article
Chemistry, Applied
Jishi Wang, Tianjin Chen, Weixing Zhang, Yan Zhao, Shuming Yang, Ailiang Chen
Article
Agriculture, Multidisciplinary
Zhiying Wang, Tingting Li, Wenjie Yu, Lu Qiao, Rui Liu, Shanshan Li, Yan Zhao, Shuming Yang, Ailiang Chen
JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE
(2020)
Article
Chemistry, Applied
Lu Qiao, He Wang, Junlin He, Shuming Yang, Ailiang Chen
Summary: Truncated aptamer E09, derived from original E00, showed improved affinity and higher specificity for E2 detection, achieving a detection limit of 0.02μg/mL using gold nanoparticles-based colorimetric method. This work demonstrates the potential application of truncated aptamers in detection of E2 and provides a proof-of-concept study for truncation of other long-sequence aptamers.
Article
Chemistry, Applied
Tingting Li, Jishi Wang, Zhiying Wang, Lu Qiao, Rui Liu, Shanshan Li, Ailiang Chen
Summary: Mitochondrial genes are commonly used for PCR-based meat adulteration authentication, but variations in gene copies can lead to quantification errors. This study developed a quantitative method using single-copy nuclear genes to accurately identify mutton adulteration, achieving high recovery rates for simulated mutton-pork, mutton-chicken, and mutton-duck samples.
Article
Food Science & Technology
Ruting Zhao, Meicheng Su, Yan Zhao, Gang Chen, Ailiang Chen, Shuming Yang
Summary: The research explored the effectiveness of different technologies in distinguishing the origin of milk from different geographical distances, and found that the combination of fatty acid and fatty acid-binding isotopes analysis was more advantageous in inter-provincial samples. Additionally, the discriminant distance was successfully reduced to 0.7 km.
Article
Biotechnology & Applied Microbiology
Nan Wang, Jie Gao, Enjing Tian, Wenjie Yu, Hui Li, Juan Zhang, Ruibin Xie, Ailiang Chen
Summary: In this study, LAMP assays were developed to detect R. senecis, a common poisonous mushroom in China, with high sensitivity and applicability, providing a valuable method for clinical sample detection and forensic identification.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Food Science & Technology
Zhiyong Zhao, Tingting Fan, E. Hengchao, Yanmei Zhang, Xiaobei Li, Xianli Yang, Enjing Tian, Ailiang Chen, Xiaoyan Zhao, Changyan Zhou
Summary: Mushroom poisoning is a serious food safety and public health issue in certain parts of the world, with high morbidity and mortality rates. This study developed a new method for simultaneous detection of four mushroom toxins in mushroom and urine samples. The method was validated for sensitivity, recovery, and precision, and successfully applied to cooked mushroom samples and vomitus, providing valuable materials for identifying mushroom poisoning caused by these toxins.
Article
Food Science & Technology
Ruibin Xie, Hui Li, Wenjie Yu, Nan Wang, Juan Zhang, Jie Gao, Ailiang Chen
Summary: This study successfully identified Takifugu species using a rapid and visual loop-mediated isothermal amplification method. The method has high specificity and can prevent false labeling, protect consumer rights, and reduce the risk of pufferfish poisoning.
JOURNAL OF FOOD SCIENCE
(2022)
Article
Food Science & Technology
Ruibin Xie, Jie Gao, Hui Li, Wenjie Yu, Juan Zhang, Nan Wang, Ailiang Chen
Summary: Real-time fluorescence loop-mediated isothermal amplification (flo-LAMP) and visual colorimetric (vis-LAMP) assays were established for Diodon identification. These methods are rapid, reliable, sensitive, and inexpensive, and can be used to monitor the presence of fish from the Diodon genus in the food industry and detect cases of Diodon poisoning.
FOOD ANALYTICAL METHODS
(2022)
Article
Food Science & Technology
Ruting Zhao, Xiaoxia Liu, Jishi Wang, Yanyun Wang, Ai-Liang Chen, Yan Zhao, Shuming Yang
Summary: This study used stable isotope analysis and local modeling methods to distinguish PGI Sunite lamb samples from samples of lamb from other brands. The results showed that local modeling was better than global modeling. The Adaptive Kennard-Stone algorithm and the PCA-Full distance method based on DD-SIMCA both achieved high accuracies. Stable isotope ratio analysis combined with local modeling can be used as an effective indicator for protecting PGI Sunite lamb.
Article
Chemistry, Analytical
Muhammad Irfan, Ghulam Murtaza, Shangnan Fu, Ailiang Chen, Feng Qu, Xin Su
Summary: Molecular simulations were used to optimize the sensitivity of lateral flow fluorescence strip (LFFS) aptasensors by optimizing the length and sequence of the DNA probes. The simulations revealed that a 30 nt probe maximized hybridization yield and reduced background signals. Based on these findings, a sensitive aptamer-based fluorescent lateral flow strip was developed for rapid detection of Cd2+.
Article
Chemistry, Analytical
Nan Wang, Juan Zhang, Bin Xiao, Ailiang Chen
Summary: This article introduces the application and development of nucleic acid lateral flow assay (NALFA) in disease detection. NALFA, as a rapid and precise nucleic acid detection technique, has gained attention due to its user-friendly operation and rapid results. However, traditional NALFA has some limitations, and thus integrating it with microfluidic technology holds great potential.
Article
Agriculture, Multidisciplinary
Xiaoyun Sun, Ruiming Zhao, Nan Wang, Juan Zhang, Ruibin Xie, Bin Xiao, Shuang Wen, Jie Gao, Ailiang Chen
Summary: Accurate milk somatic cell count is crucial for monitoring udder health and milk quality. The conventional method is low-cost but inaccurate, while flow cytometry is accurate but expensive. A customized chip method combining staining reagents and specialized counters was developed, providing a low-cost and accurate way of counting cells.
ACS AGRICULTURAL SCIENCE & TECHNOLOGY
(2022)
